CXCR5 homology model

PROTEIN CLASS

Class A (Rhodopsin)

RECEPTOR

SPECIES

Homo sapiens

STATE

Active (Δ distance (Å): 9.76 docs)

VERSION

2018-07-10

MAIN TEMPLATE

κ receptor (sequence similarity: 48%) PDB: 6B73

TEMPLATES

Main template (%) Additional templates (%) No template - freely modelled (%)
Backbone 74.8 16.7 8.5
Side-chains 20.6 56.2 23.2

Number of backbone templates: 7
Number of rotamer templates: 34

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4RWS
3ODU
6B73
4ZUD
5UIW
4N6H
5LWE
None

PDB file contains GPCRdb generic numbers in the B-factor field of CA atoms

Segment Seq.num. GPCRdb# Backbone PDB Rotamer PDB
N-term 38 CXCR4 4RWS CXCR4 4RWS
N-term 39 CXCR4 4RWS CXCR4 4RWS
N-term 40 CXCR4 4RWS CXCR4 4RWS
N-term 41 CXCR4 4RWS CXCR4 4RWS
N-term 42 CXCR4 4RWS CXCR4 4RWS
TM1 43 1.24x24 CXCR4 4RWS - -
TM1 44 1.25x25 CXCR4 4RWS - -
TM1 45 1.26x26 CXCR4 4RWS - -
TM1 46 1.27x27 CXCR4 4RWS - -
TM1 47 1.28x28 CXCR4 4RWS CXCR4 4RWS
TM1 48 1.29x29 CXCR4 4RWS PAR1 3VW7
TM1 49 1.30x30 κ receptor 6B73 PAF receptor 5ZKP
TM1 50 1.31x31 κ receptor 6B73 - -
TM1 51 1.32x32 κ receptor 6B73 μ receptor 5C1M
TM1 52 1.33x33 κ receptor 6B73 κ receptor 6B73
TM1 53 1.34x34 κ receptor 6B73 M2 receptor 4MQT
TM1 54 1.35x35 κ receptor 6B73 NTS1 receptor 5T04
TM1 55 1.36x36 κ receptor 6B73 AT2 receptor 5UNG
TM1 56 1.37x37 κ receptor 6B73 CB1 receptor 5XRA
TM1 57 1.38x38 κ receptor 6B73 OX1 receptor 4ZJ8
TM1 58 1.39x39 κ receptor 6B73 κ receptor 6B73
TM1 59 1.40x40 κ receptor 6B73 κ receptor 6B73
TM1 60 1.41x41 κ receptor 6B73 5-HT2B receptor 5TUD
TM1 61 1.42x42 κ receptor 6B73 AT2 receptor 5UNG
TM1 62 1.43x43 κ receptor 6B73 κ receptor 6B73
TM1 63 1.44x44 κ receptor 6B73 US28 4XT1
TM1 64 1.45x45 κ receptor 6B73 PAF receptor 5ZKP
TM1 65 1.46x46 κ receptor 6B73 κ receptor 6B73
TM1 66 1.47x47 κ receptor 6B73 PAF receptor 5ZKP
TM1 67 1.48x48 κ receptor 6B73 US28 4XT1
TM1 68 1.49x49 κ receptor 6B73 κ receptor 6B73
TM1 69 1.50x50 κ receptor 6B73 κ receptor 6B73
TM1 70 1.51x51 κ receptor 6B73 LPA6 receptor 5XSZ
TM1 71 1.52x52 κ receptor 6B73 κ receptor 6B73
TM1 72 1.53x53 κ receptor 6B73 κ receptor 6B73
TM1 73 1.54x54 κ receptor 6B73 PAF receptor 5ZKP
TM1 74 1.55x55 κ receptor 6B73 M2 receptor 4MQT
TM1 75 1.56x56 κ receptor 6B73 LPA6 receptor 5XSZ
TM1 76 1.57x57 κ receptor 6B73 CCR5 5UIW
TM1 77 1.58x58 κ receptor 6B73 - -
TM1 78 1.59x59 κ receptor 6B73 μ receptor 5C1M
TM1 79 1.60x60 κ receptor 6B73 NOP receptor 5DHG
ICL1 80 12.48x48 - - - -
ICL1 81 12.49x49 AT1 receptor 4ZUD M3 receptor 4U15
ICL1 82 12.50x50 AT1 receptor 4ZUD - -
ICL1 83 12.51x51 - - - -
TM2 84 2.37x37 κ receptor 6B73 CXCR4 3ODU
TM2 85 2.38x38 κ receptor 6B73 US28 4XT1
TM2 86 2.39x39 κ receptor 6B73 κ receptor 6B73
TM2 87 2.40x40 κ receptor 6B73 - -
TM2 88 2.41x41 κ receptor 6B73 LPA6 receptor 5XSZ
TM2 89 2.42x42 κ receptor 6B73 5-HT2B receptor 5TUD
TM2 90 2.43x43 κ receptor 6B73 5-HT2B receptor 5TUD
TM2 91 2.44x44 κ receptor 6B73 κ receptor 6B73
TM2 92 2.45x45 κ receptor 6B73 CXCR4 3ODU
TM2 93 2.46x46 κ receptor 6B73 κ receptor 6B73
TM2 94 2.47x47 κ receptor 6B73 κ receptor 6B73
TM2 95 2.48x48 κ receptor 6B73 AT2 receptor 5UNG
TM2 96 2.49x49 κ receptor 6B73 κ receptor 6B73
TM2 97 2.50x50 κ receptor 6B73 κ receptor 6B73
TM2 98 2.51x51 κ receptor 6B73 AT2 receptor 5UNG
TM2 99 2.52x52 κ receptor 6B73 κ receptor 6B73
TM2 100 2.53x53 κ receptor 6B73 AT2 receptor 5UNG
TM2 101 2.54x54 κ receptor 6B73 US28 4XT1
TM2 102 2.55x55 κ receptor 6B73 Rhodopsin 5DYS
TM2 103 2.56x56 κ receptor 6B73 CB1 receptor 5XRA
TM2 104 2.57x57 κ receptor 6B73 μ receptor 5C1M
TM2 105 2.58x58 κ receptor 6B73 κ receptor 6B73
TM2 106 2.59x59 κ receptor 6B73 κ receptor 6B73
TM2 107 2.60x60 κ receptor 6B73 5-HT2B receptor 5TUD
TM2 108 2.61x61 κ receptor 6B73 LPA6 receptor 5XSZ
TM2 109 2.62x62 κ receptor 6B73 β2-adrenoceptor 3SN6
TM2 110 2.63x63 κ receptor 6B73 FFA1 receptor 5TZY
TM2 111 2.64x64 κ receptor 6B73 - -
TM2 112 2.65x65 κ receptor 6B73 AT2 receptor 5UNG
TM2 113 2.66x66 κ receptor 6B73 CB1 receptor 5XRA
ECL1 114 23.49x49 - - - -
ECL1 115 23.50x50 CXCR4 3ODU CXCR4 3ODU
ECL1 116 23.51x51 CXCR4 3ODU Rhodopsin 5DYS
ECL1 117 23.52x52 - - - -
TM3 118 3.21x21 κ receptor 6B73 κ receptor 6B73
TM3 119 3.22x22 κ receptor 6B73 apelin receptor 5VBL
TM3 120 3.23x23 κ receptor 6B73 PAF receptor 5ZKP
TM3 121 3.24x24 κ receptor 6B73 κ receptor 6B73
TM3 122 3.25x25 κ receptor 6B73 κ receptor 6B73
TM3 123 3.26x26 κ receptor 6B73 κ receptor 6B73
TM3 124 3.27x27 κ receptor 6B73 NOP receptor 5DHG
TM3 125 3.28x28 κ receptor 6B73 κ receptor 6B73
TM3 126 3.29x29 κ receptor 6B73 μ receptor 5C1M
TM3 127 3.30x30 κ receptor 6B73 US28 4XT1
TM3 128 3.31x31 κ receptor 6B73 LPA6 receptor 5XSZ
TM3 129 3.32x32 κ receptor 6B73 FFA1 receptor 5TZY
TM3 130 3.33x33 κ receptor 6B73 CCR9 5LWE
TM3 131 3.34x34 κ receptor 6B73 US28 4XT1
TM3 132 3.35x35 κ receptor 6B73 κ receptor 6B73
TM3 133 3.36x36 κ receptor 6B73 CB1 receptor 5XRA
TM3 134 3.37x37 κ receptor 6B73 LPA6 receptor 5XSZ
TM3 135 3.38x38 κ receptor 6B73 PAF receptor 5ZKP
TM3 136 3.39x39 κ receptor 6B73 κ receptor 6B73
TM3 137 3.40x40 κ receptor 6B73 - -
TM3 138 3.41x41 κ receptor 6B73 LPA6 receptor 5XSZ
TM3 139 3.42x42 κ receptor 6B73 CCR9 5LWE
TM3 140 3.43x43 κ receptor 6B73 κ receptor 6B73
TM3 141 3.44x44 κ receptor 6B73 NTS1 receptor 5T04
TM3 142 3.45x45 κ receptor 6B73 AT2 receptor 5UNG
TM3 143 3.46x46 κ receptor 6B73 US28 4XT1
TM3 144 3.47x47 κ receptor 6B73 US28 4XT1
TM3 145 3.48x48 κ receptor 6B73 κ receptor 6B73
TM3 146 3.49x49 κ receptor 6B73 κ receptor 6B73
TM3 147 3.50x50 κ receptor 6B73 κ receptor 6B73
TM3 148 3.51x51 κ receptor 6B73 κ receptor 6B73
TM3 149 3.52x52 κ receptor 6B73 LPA6 receptor 5XSZ
TM3 150 3.53x53 κ receptor 6B73 κ receptor 6B73
TM3 151 3.54x54 κ receptor 6B73 US28 4XT1
TM3 152 3.55x55 κ receptor 6B73 US28 4XT1
TM3 153 3.56x56 κ receptor 6B73 κ receptor 6B73
ICL2 154 34.50x50 - - - -
ICL2 155 34.51x51 CCR5 5UIW κ receptor 6B73
ICL2 156 34.52x52 CCR5 5UIW D3 receptor 3PBL
ICL2 157 34.53x53 CCR5 5UIW CCR5 5UIW
ICL2 158 34.54x54 CCR5 5UIW - -
ICL2 159 34.55x55 CCR5 5UIW Rhodopsin 4ZWJ
ICL2 160 34.56x56 CCR5 5UIW - -
ICL2 161 34.57x57 - - - -
TM4 162 4.38x38 κ receptor 6B73 FFA1 receptor 5TZY
TM4 163 4.39x39 κ receptor 6B73 CXCR4 3ODU
TM4 164 4.40x40 κ receptor 6B73 κ receptor 6B73
TM4 165 4.41x41 κ receptor 6B73 apelin receptor 5VBL
TM4 166 4.42x42 κ receptor 6B73 - -
TM4 167 4.43x43 κ receptor 6B73 - -
TM4 168 4.44x44 κ receptor 6B73 κ receptor 6B73
TM4 169 4.45x45 κ receptor 6B73 CCR5 5UIW
TM4 170 4.46x46 κ receptor 6B73 LPA6 receptor 5XSZ
TM4 171 4.47x47 κ receptor 6B73 D4 receptor 5WIV
TM4 172 4.48x48 κ receptor 6B73 CCR9 5LWE
TM4 173 4.49x49 κ receptor 6B73 κ receptor 6B73
TM4 174 4.50x50 κ receptor 6B73 κ receptor 6B73
TM4 175 4.51x51 κ receptor 6B73 κ receptor 6B73
TM4 176 4.52x52 κ receptor 6B73 β2-adrenoceptor 3SN6
TM4 177 4.53x53 κ receptor 6B73 - -
TM4 178 4.54x54 κ receptor 6B73 M2 receptor 4MQT
TM4 179 4.55x55 κ receptor 6B73 AT2 receptor 5UNG
TM4 180 4.56x56 κ receptor 6B73 M2 receptor 4MQT
TM4 181 4.57x57 CXCR4 3ODU US28 4XT1
TM4 182 4.58x59 CXCR4 3ODU AT2 receptor 5UNG
TM4 183 4.59x60 κ receptor 6B73 AT2 receptor 5UNG
TM4 184 4.60x61 κ receptor 6B73 CCR9 5LWE
TM4 185 4.61x62 κ receptor 6B73 PAF receptor 5ZKP
TM4 186 4.62x63 κ receptor 6B73 κ receptor 6B73
TM4 187 4.63x64 κ receptor 6B73 - -
TM4 188 4.64x65 CXCR4 3ODU CXCR4 3ODU
ECL2 189 κ receptor 6B73 - -
ECL2 190 κ receptor 6B73 - -
ECL2 191 κ receptor 6B73 - -
ECL2 192 κ receptor 6B73 - -
ECL2 193 κ receptor 6B73 - -
ECL2 194 - - - -
ECL2 195 - - - -
ECL2 196 - - - -
ECL2 197 κ receptor 6B73 - -
ECL2 198 κ receptor 6B73 - -
ECL2 199 κ receptor 6B73 - -
ECL2 200 κ receptor 6B73 - -
ECL2 201 - - - -
ECL2 202 45.50x50 κ receptor 6B73 κ receptor 6B73
ECL2 203 45.51x51 κ receptor 6B73 μ receptor 5C1M
ECL2 204 45.52x52 κ receptor 6B73 β2-adrenoceptor 4LDE
ECL2 205 - - - -
ECL2 206 - - - -
ECL2 207 - - - -
ECL2 208 - - - -
ECL2 209 - - - -
ECL2 210 - - - -
ECL2 211 - - - -
TM5 212 5.32x33 CXCR4 3ODU NTS1 receptor 5T04
TM5 213 5.33x34 κ receptor 6B73 - -
TM5 214 5.34x35 κ receptor 6B73 - -
TM5 215 5.35x36 κ receptor 6B73 - -
TM5 216 5.36x37 κ receptor 6B73 P2Y1 receptor 4XNW
TM5 217 5.37x38 κ receptor 6B73 CB1 receptor 5XRA
TM5 218 5.38x39 κ receptor 6B73 - -
TM5 219 5.39x40 κ receptor 6B73 FFA1 receptor 5TZY
TM5 220 5.40x41 κ receptor 6B73 M2 receptor 4MQT
TM5 221 5.41x42 κ receptor 6B73 Y1 receptor 5ZBH
TM5 222 5.42x43 κ receptor 6B73 - -
TM5 223 5.43x44 κ receptor 6B73 - -
TM5 224 5.44x45 κ receptor 6B73 Rhodopsin 5DYS
TM5 225 5.45x46 κ receptor 6B73 5-HT2B receptor 5TUD
TM5 226 5.46x461 κ receptor 6B73 AT2 receptor 5UNG
TM5 227 5.47x47 κ receptor 6B73 κ receptor 6B73
TM5 228 5.48x48 κ receptor 6B73 LPA6 receptor 5XSZ
TM5 229 5.49x49 κ receptor 6B73 PAF receptor 5ZKP
TM5 230 5.50x50 κ receptor 6B73 κ receptor 6B73
TM5 231 5.51x51 κ receptor 6B73 Rhodopsin 4ZWJ
TM5 232 5.52x52 κ receptor 6B73 κ receptor 6B73
TM5 233 5.53x53 κ receptor 6B73 US28 4XT1
TM5 234 5.54x54 κ receptor 6B73 5-HT2B receptor 5TUD
TM5 235 5.55x55 κ receptor 6B73 - -
TM5 236 5.56x56 κ receptor 6B73 H1 receptor 3RZE
TM5 237 5.57x57 κ receptor 6B73 κ receptor 6B73
TM5 238 5.58x58 κ receptor 6B73 κ receptor 6B73
TM5 239 5.59x59 κ receptor 6B73 PAR1 3VW7
TM5 240 5.60x60 κ receptor 6B73 AT2 receptor 5UNG
TM5 241 5.61x61 κ receptor 6B73 LPA6 receptor 5XSZ
TM5 242 5.62x62 κ receptor 6B73 Rhodopsin 5DYS
TM5 243 5.63x63 κ receptor 6B73 5-HT2B receptor 5TUD
TM5 244 5.64x64 κ receptor 6B73 κ receptor 6B73
TM5 245 5.65x65 κ receptor 6B73 κ receptor 6B73
TM5 246 5.66x66 κ receptor 6B73 5-HT2C receptor 6BQG
TM5 247 5.67x67 κ receptor 6B73 - -
TM5 248 5.68x68 δ receptor 4N6H C5a1 receptor 5O9H
ICL3 249 - - - -
ICL3 250 - - - -
ICL3 251 - - - -
TM6 252 6.28x28 κ receptor 6B73 - -
TM6 253 6.29x29 κ receptor 6B73 CXCR4 3ODU
TM6 254 6.30x30 κ receptor 6B73 AT2 receptor 5UNG
TM6 255 6.31x31 κ receptor 6B73 5-HT2B receptor 5TUD
TM6 256 6.32x32 κ receptor 6B73 LPA6 receptor 5XSZ
TM6 257 6.33x33 κ receptor 6B73 5-HT2B receptor 5TUD
TM6 258 6.34x34 κ receptor 6B73 US28 4XT1
TM6 259 6.35x35 κ receptor 6B73 κ receptor 6B73
TM6 260 6.36x36 κ receptor 6B73 US28 4XT1
TM6 261 6.37x37 κ receptor 6B73 AT2 receptor 5UNG
TM6 262 6.38x38 κ receptor 6B73 US28 4XT1
TM6 263 6.39x39 κ receptor 6B73 CB1 receptor 5XRA
TM6 264 6.40x40 κ receptor 6B73 κ receptor 6B73
TM6 265 6.41x41 κ receptor 6B73 - -
TM6 266 6.42x42 κ receptor 6B73 S1P1 receptor 3V2Y
TM6 267 6.43x43 κ receptor 6B73 LPA6 receptor 5XSZ
TM6 268 6.44x44 κ receptor 6B73 κ receptor 6B73
TM6 269 6.45x45 κ receptor 6B73 PAF receptor 5ZKP
TM6 270 6.46x46 κ receptor 6B73 5-HT2B receptor 5TUD
TM6 271 6.47x47 κ receptor 6B73 κ receptor 6B73
TM6 272 6.48x48 κ receptor 6B73 κ receptor 6B73
TM6 273 6.49x49 κ receptor 6B73 - -
TM6 274 6.50x50 κ receptor 6B73 κ receptor 6B73
TM6 275 6.51x51 κ receptor 6B73 US28 4XT1
TM6 276 6.52x52 κ receptor 6B73 κ receptor 6B73
TM6 277 6.53x53 κ receptor 6B73 κ receptor 6B73
TM6 278 6.54x54 κ receptor 6B73 PAF receptor 5ZKP
TM6 279 6.55x55 κ receptor 6B73 κ receptor 6B73
TM6 280 6.56x56 κ receptor 6B73 AT2 receptor 5UNG
TM6 281 6.57x57 κ receptor 6B73 AT2 receptor 5UNG
TM6 282 6.58x58 κ receptor 6B73 AT2 receptor 5UNG
TM6 283 6.59x59 κ receptor 6B73 US28 4XT1
TM6 284 6.60x60 κ receptor 6B73 κ receptor 6B73
TM6 285 6.61x61 κ receptor 6B73 - -
TM6 286 6.62x62 CXCR4 3ODU P2Y1 receptor 4XNW
TM6 287 6.63x63 CXCR4 3ODU CXCR4 3ODU
TM6 288 6.64x64 CXCR4 3ODU US28 4XT1
ECL3 289 - - - -
ECL3 290 κ receptor 6B73 - -
ECL3 291 κ receptor 6B73 - -
ECL3 292 κ receptor 6B73 - -
TM7 293 7.24x23 CXCR4 3ODU NTS1 receptor 5T04
TM7 294 7.25x24 CXCR4 3ODU CXCR4 3ODU
TM7 295 7.26x25 CXCR4 3ODU - -
TM7 296 7.27x26 CXCR4 3ODU NTS1 receptor 5T04
TM7 297 7.28x27 κ receptor 6B73 CB1 receptor 5XRA
TM7 298 7.29x28 κ receptor 6B73 - -
TM7 299 7.30x29 κ receptor 6B73 US28 4XT1
TM7 300 7.31x30 κ receptor 6B73 US28 4XT1
TM7 301 7.32x31 κ receptor 6B73 Rhodopsin 5DYS
TM7 302 7.33x32 κ receptor 6B73 μ receptor 5C1M
TM7 303 7.34x33 κ receptor 6B73 AT2 receptor 5UNG
TM7 304 7.35x34 κ receptor 6B73 CXCR4 3ODU
TM7 305 7.36x35 κ receptor 6B73 M2 receptor 4MQT
TM7 306 7.37x36 κ receptor 6B73 - -
TM7 307 7.38x37 κ receptor 6B73 κ receptor 6B73
TM7 308 7.39x38 κ receptor 6B73 US28 4XT1
TM7 309 7.40x39 κ receptor 6B73 Rhodopsin 5DYS
TM7 310 7.41x40 κ receptor 6B73 κ receptor 6B73
TM7 311 7.42x41 κ receptor 6B73 κ receptor 6B73
TM7 312 7.43x42 κ receptor 6B73 CB1 receptor 5XRA
TM7 313 7.44x43 κ receptor 6B73 NTS1 receptor 5T04
TM7 314 7.45x45 κ receptor 6B73 US28 4XT1
TM7 315 7.46x46 κ receptor 6B73 US28 4XT1
TM7 316 7.47x47 κ receptor 6B73 μ receptor 5C1M
TM7 317 7.48x48 κ receptor 6B73 κ receptor 6B73
TM7 318 7.49x49 κ receptor 6B73 κ receptor 6B73
TM7 319 7.50x50 κ receptor 6B73 κ receptor 6B73
TM7 320 7.51x51 κ receptor 6B73 M1 receptor 5CXV
TM7 321 7.52x52 CCR9 5LWE CCR9 5LWE
TM7 322 7.53x53 CCR9 5LWE CCR9 5LWE
TM7 323 7.54x54 CCR9 5LWE 5-HT2B receptor 5TUD
TM7 324 7.55x55 CCR9 5LWE CCR9 5LWE
TM7 325 7.56x56 CCR9 5LWE C5a1 receptor 5O9H
H8 326 8.47x47 CCR9 5LWE US28 4XT1
H8 327 8.48x48 CCR9 5LWE - -
H8 328 8.49x49 CCR9 5LWE A1 receptor 6D9H
H8 329 8.50x50 CCR9 5LWE CCR9 5LWE
H8 330 8.51x51 CCR9 5LWE CCR9 5LWE
H8 331 8.52x52 CCR9 5LWE - -
H8 332 8.53x53 CCR9 5LWE CCR9 5LWE
H8 333 8.54x54 CCR9 5LWE AT2 receptor 5UNG
H8 334 8.55x55 CCR9 5LWE 5-HT2C receptor 6BQG
H8 335 8.56x56 CCR9 5LWE 5-HT2B receptor 5TUD
H8 336 8.57x57 CCR9 5LWE US28 4XT1
H8 337 8.58x58 CCR9 5LWE US28 4XT1
H8 338 8.59x59 CCR9 5LWE 5-HT2B receptor 5TUD
C-term 339 - - - -
C-term 340 - - - -
C-term 341 - - - -
C-term 342 - - - -
C-term 343 - - - -